EukRef-excavates: seven curated SSU ribosomal RNA gene databases
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60076658%3A12310%2F20%3A43901425" target="_blank" >RIV/60076658:12310/20:43901425 - isvavai.cz</a>
Alternative codes found
RIV/60077344:_____/20:00538274 RIV/00216208:11310/20:10419237
Result on the web
<a href="http://fdslive.oup.com/www.oup.com/pdf/production_in_progress.pdf" target="_blank" >http://fdslive.oup.com/www.oup.com/pdf/production_in_progress.pdf</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1093/database/baaa080" target="_blank" >10.1093/database/baaa080</a>
Alternative languages
Result language
angličtina
Original language name
EukRef-excavates: seven curated SSU ribosomal RNA gene databases
Original language description
The small subunit ribosomal RNA (SSU rRNA) gene is a widely used molecular marker to study the diversity of life. Sequencing of SSU rRNA gene amplicons has become a standard approach for the investigation of the ecology and diversity of microbes. However, a well-curated database is necessary for correct classification of these data. While available for many groups of Bacteria and Archaea, such reference databases are absent for most eukaryotes. The primary goal of the EukRef project (eukref.org ) is to close this gap and generate well-curated reference databases for major groups of eukaryotes, especially protists. Here we present a set of EukRef-curated databases for the excavate protists-a large assemblage that includes numerous taxa with divergent SSU rRNA gene sequences, which are prone to misclassification. We identified 6121 sequences, 625 of which were obtained from cultures, 3053 from cell isolations or enrichments and 2419 from environmental samples. We have corrected the classification for the majority of these curated sequences. The resulting publicly available databases will provide phylogenetically based standards for the improved identification of excavates in ecological and microbiome studies, as well as resources to classify new discoveries in excavate diversity.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10603 - Genetics and heredity (medical genetics to be 3)
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2020
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Database - The Journal of Biological Databases and Curation
ISSN
1758-0463
e-ISSN
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Volume of the periodical
neuveden
Issue of the periodical within the volume
NOV 20 2020
Country of publishing house
GB - UNITED KINGDOM
Number of pages
11
Pages from-to
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UT code for WoS article
000597225700001
EID of the result in the Scopus database
2-s2.0-85096814458